Multiple sequence alignment - TraesCS5D01G381400

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5D01G381400 chr5D 100.000 7341 0 0 1 7341 451685167 451677827 0.000000e+00 13557
1 TraesCS5D01G381400 chr5D 100.000 1795 0 0 7611 9405 451677557 451675763 0.000000e+00 3315
2 TraesCS5D01G381400 chr2D 97.725 3209 64 4 4038 7240 106329497 106332702 0.000000e+00 5513
3 TraesCS5D01G381400 chr2D 90.681 279 24 2 528 805 617891393 617891116 4.150000e-98 370
4 TraesCS5D01G381400 chr6A 97.694 3209 66 4 4038 7239 234189246 234186039 0.000000e+00 5509
5 TraesCS5D01G381400 chr6A 97.603 3213 69 4 4038 7243 222651681 222648470 0.000000e+00 5500
6 TraesCS5D01G381400 chr6B 97.600 3209 69 4 4038 7239 522330524 522327317 0.000000e+00 5493
7 TraesCS5D01G381400 chr4A 97.600 3209 69 4 4038 7239 624981540 624978333 0.000000e+00 5493
8 TraesCS5D01G381400 chr7A 97.600 3209 67 6 4038 7239 109348755 109351960 0.000000e+00 5491
9 TraesCS5D01G381400 chr7B 97.570 3210 70 4 4038 7240 443304178 443307386 0.000000e+00 5489
10 TraesCS5D01G381400 chr7B 97.538 3209 71 4 4038 7239 42148151 42151358 0.000000e+00 5481
11 TraesCS5D01G381400 chr5A 97.569 3209 70 4 4038 7239 82313153 82309946 0.000000e+00 5487
12 TraesCS5D01G381400 chr5A 96.767 2165 61 7 1882 4041 570507660 570505500 0.000000e+00 3602
13 TraesCS5D01G381400 chr5A 92.454 1895 88 22 7 1883 570509551 570507694 0.000000e+00 2656
14 TraesCS5D01G381400 chr5A 90.049 1819 86 39 7626 9405 570505073 570503311 0.000000e+00 2268
15 TraesCS5D01G381400 chr5A 96.078 102 3 1 7241 7341 570505517 570505416 2.100000e-36 165
16 TraesCS5D01G381400 chr5B 95.339 1652 60 8 1 1651 551509943 551508308 0.000000e+00 2608
17 TraesCS5D01G381400 chr5B 83.410 1302 157 38 2701 3971 551507174 551505901 0.000000e+00 1153
18 TraesCS5D01G381400 chr5B 88.669 909 70 12 7661 8561 551505358 551504475 0.000000e+00 1077
19 TraesCS5D01G381400 chr5B 84.420 828 70 33 8611 9405 551504286 551503485 0.000000e+00 760
20 TraesCS5D01G381400 chr5B 87.915 331 21 7 2129 2444 551507714 551507388 1.150000e-98 372
21 TraesCS5D01G381400 chr5B 86.321 212 12 8 1693 1898 551508175 551507975 2.060000e-51 215
22 TraesCS5D01G381400 chr2A 90.681 279 24 2 528 805 748441630 748441353 4.150000e-98 370
23 TraesCS5D01G381400 chr2B 90.253 277 25 2 519 794 753804601 753804876 2.500000e-95 361


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G381400 chr5D 451675763 451685167 9404 True 8436.000000 13557 100.000 1 9405 2 chr5D.!!$R1 9404
1 TraesCS5D01G381400 chr2D 106329497 106332702 3205 False 5513.000000 5513 97.725 4038 7240 1 chr2D.!!$F1 3202
2 TraesCS5D01G381400 chr6A 234186039 234189246 3207 True 5509.000000 5509 97.694 4038 7239 1 chr6A.!!$R2 3201
3 TraesCS5D01G381400 chr6A 222648470 222651681 3211 True 5500.000000 5500 97.603 4038 7243 1 chr6A.!!$R1 3205
4 TraesCS5D01G381400 chr6B 522327317 522330524 3207 True 5493.000000 5493 97.600 4038 7239 1 chr6B.!!$R1 3201
5 TraesCS5D01G381400 chr4A 624978333 624981540 3207 True 5493.000000 5493 97.600 4038 7239 1 chr4A.!!$R1 3201
6 TraesCS5D01G381400 chr7A 109348755 109351960 3205 False 5491.000000 5491 97.600 4038 7239 1 chr7A.!!$F1 3201
7 TraesCS5D01G381400 chr7B 443304178 443307386 3208 False 5489.000000 5489 97.570 4038 7240 1 chr7B.!!$F2 3202
8 TraesCS5D01G381400 chr7B 42148151 42151358 3207 False 5481.000000 5481 97.538 4038 7239 1 chr7B.!!$F1 3201
9 TraesCS5D01G381400 chr5A 82309946 82313153 3207 True 5487.000000 5487 97.569 4038 7239 1 chr5A.!!$R1 3201
10 TraesCS5D01G381400 chr5A 570503311 570509551 6240 True 2172.750000 3602 93.837 7 9405 4 chr5A.!!$R2 9398
11 TraesCS5D01G381400 chr5B 551503485 551509943 6458 True 1030.833333 2608 87.679 1 9405 6 chr5B.!!$R1 9404

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
77 78 0.761187 TCTTCAGGTCAGCAACAGCT 59.239 50.0 0.00 0.00 39.75 4.24 F
1484 1509 0.743097 GAATTGTCCTGAGGGCATGC 59.257 55.0 6.62 9.90 0.00 4.06 F
1841 1963 0.827089 CCCACATGGTTTGTCAGGCA 60.827 55.0 0.00 0.00 36.00 4.75 F
2194 2388 1.128188 ACAGGTGGGGGAAGACTCAC 61.128 60.0 0.00 0.00 0.00 3.51 F
3789 4037 0.322648 CAGTGCATGACAGTCTGGGA 59.677 55.0 4.53 0.00 0.00 4.37 F
5224 5496 0.174845 CATTCGTAAGGTGGCCTCGA 59.825 55.0 3.32 2.02 30.89 4.04 F
6620 6896 0.106868 CAATGCTGCAGGAGGATGGA 60.107 55.0 17.12 0.00 31.99 3.41 F
7941 8426 0.168128 GCCGATGTTTGTGCTGTACC 59.832 55.0 0.00 0.00 0.00 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1493 1518 0.108945 GGCTACCTACGACCACACAC 60.109 60.000 0.00 0.00 0.00 3.82 R
2763 2990 2.224305 CGGGAAGGACAAGAAACAGACT 60.224 50.000 0.00 0.00 0.00 3.24 R
3529 3774 4.437682 AGACAAAGGTCCAATGAGACAA 57.562 40.909 1.26 0.00 45.48 3.18 R
4032 4301 2.940994 TGGGTTTCATCTCCAACGAA 57.059 45.000 0.00 0.00 0.00 3.85 R
5674 5949 2.480555 CTGGATTCGCCGCACAAC 59.519 61.111 0.00 0.00 40.66 3.32 R
6893 7169 1.145945 TCAATTGGTGCTACCCCAACA 59.854 47.619 5.42 0.00 44.36 3.33 R
8163 8649 1.679153 TCCTGCAAAACCGGTTCTTTC 59.321 47.619 22.53 11.87 0.00 2.62 R
9313 9993 0.040204 CCTGAAAATGACTGCCCCCT 59.960 55.000 0.00 0.00 0.00 4.79 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 0.761187 TCTTCAGGTCAGCAACAGCT 59.239 50.000 0.00 0.00 39.75 4.24
162 163 1.930908 GATGCCCTGCACAGCTTCAC 61.931 60.000 11.98 0.00 43.04 3.18
181 182 2.976490 ATGGCAGCCCAGTGGAGAC 61.976 63.158 11.95 2.61 46.24 3.36
244 245 3.884895 TGTCAACAATCACACAGACCTT 58.115 40.909 0.00 0.00 0.00 3.50
626 627 1.358402 CTGCTCCGTGATCTCCTCG 59.642 63.158 0.00 0.00 0.00 4.63
932 936 2.813908 GCCGCCGACGACATTCTT 60.814 61.111 0.00 0.00 43.93 2.52
933 937 2.799540 GCCGCCGACGACATTCTTC 61.800 63.158 0.00 0.00 43.93 2.87
934 938 1.153823 CCGCCGACGACATTCTTCT 60.154 57.895 0.00 0.00 43.93 2.85
962 987 1.408969 GCCAAGGGGAACAAACAGAA 58.591 50.000 0.00 0.00 35.59 3.02
964 989 1.341209 CCAAGGGGAACAAACAGAAGC 59.659 52.381 0.00 0.00 35.59 3.86
1313 1338 1.882623 GGCATCTACCTATGGCTTTGC 59.117 52.381 3.41 0.00 46.09 3.68
1314 1339 2.575532 GCATCTACCTATGGCTTTGCA 58.424 47.619 0.00 0.00 0.00 4.08
1315 1340 2.291741 GCATCTACCTATGGCTTTGCAC 59.708 50.000 0.00 0.00 0.00 4.57
1316 1341 3.813443 CATCTACCTATGGCTTTGCACT 58.187 45.455 0.00 0.00 0.00 4.40
1454 1479 2.769095 GTCAGACTTGGGAGCTTAGGAT 59.231 50.000 0.00 0.00 0.00 3.24
1458 1483 3.118592 AGACTTGGGAGCTTAGGATTTCG 60.119 47.826 0.00 0.00 0.00 3.46
1483 1508 2.133281 TGAATTGTCCTGAGGGCATG 57.867 50.000 6.62 0.00 0.00 4.06
1484 1509 0.743097 GAATTGTCCTGAGGGCATGC 59.257 55.000 6.62 9.90 0.00 4.06
1493 1518 2.969806 GAGGGCATGCGTGTGTGTG 61.970 63.158 12.44 0.00 0.00 3.82
1548 1573 2.234908 CAGGGGAATGAAGAGTTCGACT 59.765 50.000 0.00 0.00 0.00 4.18
1841 1963 0.827089 CCCACATGGTTTGTCAGGCA 60.827 55.000 0.00 0.00 36.00 4.75
1898 2060 7.651027 ATTCTATTTTGTATTCTGCTGCCTT 57.349 32.000 0.00 0.00 0.00 4.35
1924 2086 2.991250 AGTTAGCAGACGCCAATTCAT 58.009 42.857 0.00 0.00 39.83 2.57
1972 2134 8.694394 GTTCTCTCAAAGAAAAATGCACATTAC 58.306 33.333 0.00 0.00 45.50 1.89
2094 2257 7.161404 TGCCATTGATCTGTTATCCAGTATAC 58.839 38.462 0.00 0.00 42.19 1.47
2194 2388 1.128188 ACAGGTGGGGGAAGACTCAC 61.128 60.000 0.00 0.00 0.00 3.51
2248 2442 3.477530 AGCTATAAAGAAATCGGTGGCC 58.522 45.455 0.00 0.00 0.00 5.36
2318 2513 8.918202 ATTTTTGGAGGTTTTATTTCCTTTCC 57.082 30.769 0.00 0.00 33.83 3.13
2354 2549 3.630312 TGTTCCAGTTTTAGTGACCAAGC 59.370 43.478 0.00 0.00 0.00 4.01
2448 2657 8.452534 GTCCATCGGTAATTATTTTGTTGTGTA 58.547 33.333 0.00 0.00 0.00 2.90
2450 2659 9.284594 CCATCGGTAATTATTTTGTTGTGTAAG 57.715 33.333 0.00 0.00 0.00 2.34
2453 2662 9.491675 TCGGTAATTATTTTGTTGTGTAAGAGA 57.508 29.630 0.00 0.00 0.00 3.10
2680 2907 4.214332 AGTTTGACTTCGGATTTGAGAAGC 59.786 41.667 5.25 0.44 45.56 3.86
2695 2922 5.078411 TGAGAAGCAAACTAGTCATCCTC 57.922 43.478 0.00 0.00 0.00 3.71
2763 2990 7.648039 ATTGCGGTTATGTAATTTTCCCTTA 57.352 32.000 0.00 0.00 0.00 2.69
2778 3005 4.618920 TCCCTTAGTCTGTTTCTTGTCC 57.381 45.455 0.00 0.00 0.00 4.02
2875 3102 4.937201 ATGTTGTTTCCTGGAGTTTTCC 57.063 40.909 0.00 0.00 44.31 3.13
2889 3116 2.554893 AGTTTTCCGGCGCTTATTTCAA 59.445 40.909 7.64 0.00 0.00 2.69
3032 3271 5.830991 TCTAATAAAACCCTGCAACTGTTGT 59.169 36.000 20.57 2.25 0.00 3.32
3335 3575 9.875691 GCATTTAAAGGTGATTTTTAATCCTCT 57.124 29.630 1.37 0.00 32.00 3.69
3370 3610 4.935205 TGATTCGTGGATTGTTTCTACCAG 59.065 41.667 0.00 0.00 32.44 4.00
3384 3624 3.106827 TCTACCAGATGTGAATGCAGGA 58.893 45.455 0.00 0.00 0.00 3.86
3385 3625 3.713248 TCTACCAGATGTGAATGCAGGAT 59.287 43.478 0.00 0.00 0.00 3.24
3454 3694 5.858581 GCAGTTGTCCTACATTGAACAAATC 59.141 40.000 0.00 0.00 33.75 2.17
3529 3774 3.561143 TGTTGGTTTGCTGTTACCTGAT 58.439 40.909 0.00 0.00 35.41 2.90
3587 3834 9.916397 CTTTATTTGTATTGTGTATCTCCGTTC 57.084 33.333 0.00 0.00 0.00 3.95
3657 3904 5.645929 TGATGATAACACTTGTTTACGCCAT 59.354 36.000 0.00 0.00 39.31 4.40
3672 3919 6.685527 TTACGCCATGTATGCATTTTTCTA 57.314 33.333 3.54 0.00 31.99 2.10
3692 3939 9.886132 TTTTCTAACCTTCTCATTACCTCATAC 57.114 33.333 0.00 0.00 0.00 2.39
3789 4037 0.322648 CAGTGCATGACAGTCTGGGA 59.677 55.000 4.53 0.00 0.00 4.37
3844 4092 2.681344 GTGAAAAAGAGGACCAACGTGT 59.319 45.455 0.00 0.00 0.00 4.49
4036 4305 8.842358 TTTTATTCTGGTCAAGTCTATTTCGT 57.158 30.769 0.00 0.00 0.00 3.85
4053 4322 3.433306 TCGTTGGAGATGAAACCCAAT 57.567 42.857 0.00 0.00 41.41 3.16
4362 4631 0.534873 GGTCTCTGACAGGGAAGCTC 59.465 60.000 6.60 0.00 33.68 4.09
4382 4651 0.176680 CGGGAGCTAGTTGATGCAGT 59.823 55.000 0.00 0.00 0.00 4.40
4588 4857 2.759355 ACCGGATTATCCTGGTCAAGA 58.241 47.619 9.46 0.00 38.45 3.02
4913 5185 4.525487 ACATCCGGTGACTTTTAGTAGTGA 59.475 41.667 0.00 0.00 0.00 3.41
5224 5496 0.174845 CATTCGTAAGGTGGCCTCGA 59.825 55.000 3.32 2.02 30.89 4.04
5258 5530 2.586792 CAGGGGAAGGAGAAGCGG 59.413 66.667 0.00 0.00 0.00 5.52
5291 5563 1.679680 CTGGTGGTGGAATGATGATGC 59.320 52.381 0.00 0.00 0.00 3.91
5338 5610 3.639094 AGATTGCTTCAGACGCCTATACT 59.361 43.478 0.00 0.00 0.00 2.12
5566 5841 2.638480 CCAACTCTTGGTGAAGGACA 57.362 50.000 0.00 0.00 45.93 4.02
5589 5864 3.580458 AGGAGATTAAGCATAGATGGCGT 59.420 43.478 0.00 0.00 36.08 5.68
5671 5946 2.306805 TCCTTTGATGAGACCAGCATGT 59.693 45.455 0.00 0.00 38.62 3.21
5674 5949 2.103537 TGATGAGACCAGCATGTGTG 57.896 50.000 0.00 0.00 33.19 3.82
5697 5972 2.107141 CGGCGAATCCAGGAGTCC 59.893 66.667 11.39 0.00 34.01 3.85
5998 6273 3.436704 CCGCTTAAGAAGAATGACAAGCA 59.563 43.478 6.67 0.00 38.59 3.91
6012 6287 5.273674 TGACAAGCATGACCAAAAATCAA 57.726 34.783 0.00 0.00 0.00 2.57
6306 6581 2.513204 CTGCATCAGGGGTCAGCG 60.513 66.667 0.00 0.00 0.00 5.18
6481 6756 4.838423 CCTTGGAATCAAAAGGGTTTAGGT 59.162 41.667 6.17 0.00 39.49 3.08
6590 6866 1.618837 CCTCAGAAGGACACCTTTCGA 59.381 52.381 4.51 4.16 44.82 3.71
6620 6896 0.106868 CAATGCTGCAGGAGGATGGA 60.107 55.000 17.12 0.00 31.99 3.41
6734 7010 7.147976 CACAAAAGCTAAAAGGCAAGTTCTAT 58.852 34.615 0.00 0.00 34.17 1.98
6825 7101 0.249398 GTTAGGTGTGGCGGAGATGT 59.751 55.000 0.00 0.00 0.00 3.06
6893 7169 7.012515 GTCCGGAATGATGATATACGAGATAGT 59.987 40.741 5.23 0.00 0.00 2.12
6940 7216 2.027745 AGCTTGTCCAACATCGTCTGAT 60.028 45.455 0.00 0.00 34.28 2.90
7117 7393 1.794714 CTAGCTATGGACAGGGGTGT 58.205 55.000 0.00 0.00 0.00 4.16
7227 7503 4.499188 GGGACTAAAGGCTTTGTTGTTGTC 60.499 45.833 22.32 16.99 0.00 3.18
7240 7516 3.003378 TGTTGTTGTCGTTGTTGTTGTCA 59.997 39.130 0.00 0.00 0.00 3.58
7243 7519 3.251245 TGTTGTCGTTGTTGTTGTCAAGT 59.749 39.130 0.00 0.00 33.97 3.16
7244 7520 3.733024 TGTCGTTGTTGTTGTCAAGTC 57.267 42.857 0.00 0.00 33.97 3.01
7245 7521 3.331150 TGTCGTTGTTGTTGTCAAGTCT 58.669 40.909 0.00 0.00 33.97 3.24
7246 7522 4.496360 TGTCGTTGTTGTTGTCAAGTCTA 58.504 39.130 0.00 0.00 33.97 2.59
7247 7523 5.113383 TGTCGTTGTTGTTGTCAAGTCTAT 58.887 37.500 0.00 0.00 33.97 1.98
7700 8185 2.906389 TGACTTTGCTCTACCCATGACT 59.094 45.455 0.00 0.00 0.00 3.41
7924 8409 2.729156 GCTTAGCAATCACAAGAACGCC 60.729 50.000 0.00 0.00 0.00 5.68
7941 8426 0.168128 GCCGATGTTTGTGCTGTACC 59.832 55.000 0.00 0.00 0.00 3.34
8112 8598 9.132521 CTGCTTTGTTCAATTCCTGTTTAATAG 57.867 33.333 0.00 0.00 0.00 1.73
8142 8628 5.182760 GCAAGTGATGAGATTCAGTTTCCTT 59.817 40.000 0.00 0.00 37.20 3.36
8163 8649 7.937649 TCCTTCAGATTTATGCATCAATTGAG 58.062 34.615 14.54 7.33 0.00 3.02
8167 8653 9.797556 TTCAGATTTATGCATCAATTGAGAAAG 57.202 29.630 14.54 5.12 0.00 2.62
8188 8674 2.279935 ACCGGTTTTGCAGGAATACA 57.720 45.000 0.00 0.00 36.26 2.29
8441 8929 3.370527 GCTGAACCTAGCACCCTGAAATA 60.371 47.826 0.00 0.00 43.17 1.40
8540 9029 5.575957 CAGCCTGTGTGAAATGATTATGAC 58.424 41.667 0.00 0.00 0.00 3.06
8596 9090 7.716998 TCTTGTGTGCTCTCTTCTTAGAAATTT 59.283 33.333 0.00 0.00 0.00 1.82
8597 9091 7.194607 TGTGTGCTCTCTTCTTAGAAATTTG 57.805 36.000 0.00 0.00 0.00 2.32
8598 9092 6.767902 TGTGTGCTCTCTTCTTAGAAATTTGT 59.232 34.615 0.00 0.00 0.00 2.83
8599 9093 7.041780 TGTGTGCTCTCTTCTTAGAAATTTGTC 60.042 37.037 0.00 0.00 0.00 3.18
8603 9227 9.593134 TGCTCTCTTCTTAGAAATTTGTCTATC 57.407 33.333 0.00 0.00 30.25 2.08
8666 9297 9.298774 GTAGTCGCTCACAAAATAGTAAATACT 57.701 33.333 0.00 0.00 40.24 2.12
8668 9299 9.517609 AGTCGCTCACAAAATAGTAAATACTAG 57.482 33.333 6.48 0.00 41.62 2.57
8681 9312 6.910995 AGTAAATACTAGTACTATGCCAGCG 58.089 40.000 4.31 0.00 34.13 5.18
8685 9316 7.463961 AATACTAGTACTATGCCAGCGTAAT 57.536 36.000 4.31 0.00 0.00 1.89
8686 9317 8.571461 AATACTAGTACTATGCCAGCGTAATA 57.429 34.615 4.31 0.00 0.00 0.98
8687 9318 6.889301 ACTAGTACTATGCCAGCGTAATAA 57.111 37.500 2.33 0.00 0.00 1.40
8691 9322 7.463961 AGTACTATGCCAGCGTAATAACTAT 57.536 36.000 0.00 0.00 0.00 2.12
8717 9354 4.387026 AGATTGTGAAGGGGACATTCAA 57.613 40.909 0.00 0.00 38.34 2.69
8841 9481 3.071786 ACATCACTCGTGAGCTAATCG 57.928 47.619 5.91 0.00 43.61 3.34
8877 9517 9.478019 CAAGTATGAACGACTATGACAATTTTC 57.522 33.333 0.00 0.00 0.00 2.29
8882 9522 7.136119 TGAACGACTATGACAATTTTCCAAAC 58.864 34.615 0.00 0.00 0.00 2.93
8932 9572 6.697395 AGGTTTTTCTAGCGGCAAAATTATT 58.303 32.000 1.45 0.00 0.00 1.40
8964 9605 3.181543 GCATGTGACGAAACGAGTTACTC 60.182 47.826 1.64 1.64 0.00 2.59
8967 9608 2.723143 GTGACGAAACGAGTTACTCCAC 59.277 50.000 6.80 3.64 0.00 4.02
8968 9609 2.620115 TGACGAAACGAGTTACTCCACT 59.380 45.455 6.80 0.00 0.00 4.00
8969 9610 3.814842 TGACGAAACGAGTTACTCCACTA 59.185 43.478 6.80 0.00 0.00 2.74
8970 9611 4.152607 ACGAAACGAGTTACTCCACTAC 57.847 45.455 6.80 0.00 0.00 2.73
8971 9612 3.565482 ACGAAACGAGTTACTCCACTACA 59.435 43.478 6.80 0.00 0.00 2.74
8972 9613 4.036734 ACGAAACGAGTTACTCCACTACAA 59.963 41.667 6.80 0.00 0.00 2.41
8973 9614 4.977963 CGAAACGAGTTACTCCACTACAAA 59.022 41.667 6.80 0.00 0.00 2.83
8974 9615 5.108103 CGAAACGAGTTACTCCACTACAAAC 60.108 44.000 6.80 0.00 0.00 2.93
8997 9638 3.536917 CTCAGGCCCGCGATACCA 61.537 66.667 8.23 0.00 0.00 3.25
9008 9649 3.309388 CCGCGATACCAATGTTCTCTAG 58.691 50.000 8.23 0.00 0.00 2.43
9014 9655 5.174035 CGATACCAATGTTCTCTAGCGAAAG 59.826 44.000 0.00 0.00 0.00 2.62
9028 9692 1.455408 GCGAAAGTTCCAAATTTGCCG 59.545 47.619 12.92 0.35 0.00 5.69
9045 9709 2.752354 TGCCGGTATTCATCAAAAGGTG 59.248 45.455 1.90 0.00 0.00 4.00
9046 9710 2.479560 GCCGGTATTCATCAAAAGGTGC 60.480 50.000 1.90 0.00 0.00 5.01
9047 9711 2.099098 CCGGTATTCATCAAAAGGTGCC 59.901 50.000 0.00 0.00 0.00 5.01
9050 9714 4.638421 CGGTATTCATCAAAAGGTGCCTAA 59.362 41.667 0.00 0.00 0.00 2.69
9083 9749 4.827692 TGCCATTTAACAGTATCACGAGT 58.172 39.130 0.00 0.00 0.00 4.18
9123 9789 4.333926 CGATCCAGAAAAAGATTGGAGGAC 59.666 45.833 0.00 0.00 43.71 3.85
9139 9805 2.352960 GAGGACGCTTTTGATCCACATC 59.647 50.000 0.00 0.00 34.73 3.06
9155 9821 2.999485 ATCTCGCAGCAGCTCGTGT 61.999 57.895 12.18 2.06 39.10 4.49
9209 9875 2.223745 GACAGCTTTGGTTCCGGTAAA 58.776 47.619 0.00 0.00 0.00 2.01
9255 9935 1.597854 TCAAGAAGCCACAGCACCG 60.598 57.895 0.00 0.00 43.56 4.94
9291 9971 3.973657 AGTTTCAGCAACAGCATTTCAG 58.026 40.909 0.00 0.00 37.93 3.02
9308 9988 0.957395 CAGCAAGAACGGGCAGTCAT 60.957 55.000 0.00 0.00 0.00 3.06
9309 9989 0.250901 AGCAAGAACGGGCAGTCATT 60.251 50.000 0.00 0.00 0.00 2.57
9310 9990 0.598065 GCAAGAACGGGCAGTCATTT 59.402 50.000 0.00 0.00 0.00 2.32
9311 9991 1.000274 GCAAGAACGGGCAGTCATTTT 60.000 47.619 0.00 0.00 0.00 1.82
9312 9992 2.922335 GCAAGAACGGGCAGTCATTTTC 60.922 50.000 0.00 0.00 0.00 2.29
9313 9993 2.270352 AGAACGGGCAGTCATTTTCA 57.730 45.000 0.00 0.00 0.00 2.69
9314 9994 2.154462 AGAACGGGCAGTCATTTTCAG 58.846 47.619 0.00 0.00 0.00 3.02
9316 9996 0.609131 ACGGGCAGTCATTTTCAGGG 60.609 55.000 0.00 0.00 0.00 4.45
9317 9997 1.315257 CGGGCAGTCATTTTCAGGGG 61.315 60.000 0.00 0.00 0.00 4.79
9318 9998 0.972471 GGGCAGTCATTTTCAGGGGG 60.972 60.000 0.00 0.00 0.00 5.40
9319 9999 1.607801 GGCAGTCATTTTCAGGGGGC 61.608 60.000 0.00 0.00 0.00 5.80
9320 10000 0.899717 GCAGTCATTTTCAGGGGGCA 60.900 55.000 0.00 0.00 0.00 5.36
9321 10001 1.180029 CAGTCATTTTCAGGGGGCAG 58.820 55.000 0.00 0.00 0.00 4.85
9322 10002 0.779997 AGTCATTTTCAGGGGGCAGT 59.220 50.000 0.00 0.00 0.00 4.40
9323 10003 1.177401 GTCATTTTCAGGGGGCAGTC 58.823 55.000 0.00 0.00 0.00 3.51
9324 10004 0.776810 TCATTTTCAGGGGGCAGTCA 59.223 50.000 0.00 0.00 0.00 3.41
9349 10029 2.125912 GCAGCATCGACAGACGGT 60.126 61.111 0.00 0.00 42.82 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 2.033141 GGCTCTGGTGCTGCTGAA 59.967 61.111 0.00 0.00 0.00 3.02
162 163 2.439701 CTCCACTGGGCTGCCATG 60.440 66.667 22.05 14.73 0.00 3.66
181 182 4.764172 AGACGAGATTGAGAAGGAATTGG 58.236 43.478 0.00 0.00 0.00 3.16
244 245 2.591429 CGCAGCACCTGTTCACCA 60.591 61.111 0.00 0.00 33.43 4.17
308 309 2.501610 GACGTGGGGATCAGGCTC 59.498 66.667 0.00 0.00 34.84 4.70
313 314 2.758327 CCTCCGACGTGGGGATCA 60.758 66.667 17.22 0.00 43.10 2.92
932 936 1.925455 CCCTTGGCCTTGGGAGAGA 60.925 63.158 23.83 0.00 46.15 3.10
933 937 2.679716 CCCTTGGCCTTGGGAGAG 59.320 66.667 23.83 1.81 46.15 3.20
934 938 2.941025 CCCCTTGGCCTTGGGAGA 60.941 66.667 28.00 0.00 46.15 3.71
964 989 2.743928 GAGCAGCACGAACCCCTG 60.744 66.667 0.00 0.00 0.00 4.45
1086 1111 4.807039 CGCGGGGTCGTAGGGTTG 62.807 72.222 0.00 0.00 38.89 3.77
1301 1326 4.265073 AGTTAGAAGTGCAAAGCCATAGG 58.735 43.478 0.00 0.00 0.00 2.57
1312 1337 3.514309 TGGAAGACCCTAGTTAGAAGTGC 59.486 47.826 0.00 0.00 35.38 4.40
1313 1338 5.941555 ATGGAAGACCCTAGTTAGAAGTG 57.058 43.478 0.00 0.00 35.38 3.16
1314 1339 5.189934 CCAATGGAAGACCCTAGTTAGAAGT 59.810 44.000 0.00 0.00 35.38 3.01
1315 1340 5.189934 ACCAATGGAAGACCCTAGTTAGAAG 59.810 44.000 6.16 0.00 35.38 2.85
1316 1341 5.045869 CACCAATGGAAGACCCTAGTTAGAA 60.046 44.000 6.16 0.00 35.38 2.10
1454 1479 3.146066 CAGGACAATTCAACCTCCGAAA 58.854 45.455 0.00 0.00 31.06 3.46
1458 1483 2.619074 CCCTCAGGACAATTCAACCTCC 60.619 54.545 0.00 0.00 33.47 4.30
1483 1508 2.304516 GACCACACACACACACACGC 62.305 60.000 0.00 0.00 0.00 5.34
1484 1509 1.713246 GACCACACACACACACACG 59.287 57.895 0.00 0.00 0.00 4.49
1493 1518 0.108945 GGCTACCTACGACCACACAC 60.109 60.000 0.00 0.00 0.00 3.82
1548 1573 0.768221 AACAGTGCCTCCCTCTTGGA 60.768 55.000 0.00 0.00 42.41 3.53
1562 1587 0.317479 GGTGGTAGTGCTCGAACAGT 59.683 55.000 1.19 1.19 0.00 3.55
1608 1633 2.338785 GCTTGGCCTTCTCCAGCAC 61.339 63.158 3.32 0.00 37.44 4.40
1871 1993 9.359653 AGGCAGCAGAATACAAAATAGAATAAT 57.640 29.630 0.00 0.00 0.00 1.28
1872 1994 8.752005 AGGCAGCAGAATACAAAATAGAATAA 57.248 30.769 0.00 0.00 0.00 1.40
1873 1995 8.752005 AAGGCAGCAGAATACAAAATAGAATA 57.248 30.769 0.00 0.00 0.00 1.75
1874 1996 7.559170 AGAAGGCAGCAGAATACAAAATAGAAT 59.441 33.333 0.00 0.00 0.00 2.40
1875 1997 6.886459 AGAAGGCAGCAGAATACAAAATAGAA 59.114 34.615 0.00 0.00 0.00 2.10
1876 1998 6.418101 AGAAGGCAGCAGAATACAAAATAGA 58.582 36.000 0.00 0.00 0.00 1.98
1877 1999 6.690194 AGAAGGCAGCAGAATACAAAATAG 57.310 37.500 0.00 0.00 0.00 1.73
1898 2060 2.995283 TGGCGTCTGCTAACTACTAGA 58.005 47.619 0.00 0.00 42.25 2.43
1924 2086 7.498900 AGAACTGTTTATGAAACTGATCACACA 59.501 33.333 13.73 0.00 41.36 3.72
2094 2257 9.220635 TGCATATTTTATTCGAAAGTGAAATCG 57.779 29.630 0.00 3.72 40.31 3.34
2248 2442 1.319374 CGAAAAGCAATTGCAGCATCG 59.681 47.619 30.89 26.49 45.16 3.84
2318 2513 5.186996 ACTGGAACACTAAGCAAACATTG 57.813 39.130 0.00 0.00 0.00 2.82
2354 2549 2.603110 CGGATGAGTACACCATCAAACG 59.397 50.000 21.82 15.35 41.52 3.60
2411 2619 2.450476 ACCGATGGACTTAACCGTACT 58.550 47.619 0.00 0.00 0.00 2.73
2656 2883 5.615764 GCTTCTCAAATCCGAAGTCAAACTC 60.616 44.000 0.00 0.00 39.01 3.01
2680 2907 4.081198 AGCTTCAGGAGGATGACTAGTTTG 60.081 45.833 0.00 0.00 0.00 2.93
2684 2911 6.945435 TCTAATAGCTTCAGGAGGATGACTAG 59.055 42.308 0.00 0.00 0.00 2.57
2687 2914 5.303078 TGTCTAATAGCTTCAGGAGGATGAC 59.697 44.000 0.00 0.00 0.00 3.06
2695 2922 7.928167 TGTATGAATGTGTCTAATAGCTTCAGG 59.072 37.037 0.00 0.00 0.00 3.86
2763 2990 2.224305 CGGGAAGGACAAGAAACAGACT 60.224 50.000 0.00 0.00 0.00 3.24
2778 3005 7.041780 CCAATGATATAAACAGAAGACGGGAAG 60.042 40.741 0.00 0.00 0.00 3.46
3335 3575 6.901081 ATCCACGAATCATAGACATCTGTA 57.099 37.500 0.00 0.00 0.00 2.74
3339 3579 6.851222 AACAATCCACGAATCATAGACATC 57.149 37.500 0.00 0.00 0.00 3.06
3370 3610 9.387257 TGAACATATATATCCTGCATTCACATC 57.613 33.333 0.00 0.00 0.00 3.06
3529 3774 4.437682 AGACAAAGGTCCAATGAGACAA 57.562 40.909 1.26 0.00 45.48 3.18
3587 3834 7.615757 GGAAAAGGGATAAAGGGTATCCATATG 59.384 40.741 13.10 0.00 44.02 1.78
3657 3904 7.994425 TGAGAAGGTTAGAAAAATGCATACA 57.006 32.000 0.00 0.00 0.00 2.29
3672 3919 8.095452 AGATTGTATGAGGTAATGAGAAGGTT 57.905 34.615 0.00 0.00 0.00 3.50
3692 3939 9.288576 TCCCTGCATTAGACATTATTTAGATTG 57.711 33.333 0.00 0.00 0.00 2.67
3704 3952 4.574674 ATTGTCTTCCCTGCATTAGACA 57.425 40.909 13.19 13.19 43.69 3.41
3844 4092 4.019411 TCCAATGTGATCTCCAAGTAGCAA 60.019 41.667 0.00 0.00 0.00 3.91
4032 4301 2.940994 TGGGTTTCATCTCCAACGAA 57.059 45.000 0.00 0.00 0.00 3.85
4033 4302 2.940994 TTGGGTTTCATCTCCAACGA 57.059 45.000 0.00 0.00 35.83 3.85
4034 4303 4.513442 TCTATTGGGTTTCATCTCCAACG 58.487 43.478 0.00 0.00 42.48 4.10
4035 4304 7.410120 AAATCTATTGGGTTTCATCTCCAAC 57.590 36.000 0.00 0.00 42.48 3.77
4036 4305 7.148086 CGAAAATCTATTGGGTTTCATCTCCAA 60.148 37.037 0.00 0.00 43.62 3.53
4053 4322 3.002102 GTTACGCCCCAACGAAAATCTA 58.998 45.455 0.00 0.00 36.70 1.98
4362 4631 0.531532 CTGCATCAACTAGCTCCCGG 60.532 60.000 0.00 0.00 0.00 5.73
4382 4651 2.030027 ATCAACACCTCTCCTCACCA 57.970 50.000 0.00 0.00 0.00 4.17
4488 4757 2.034124 ACACCATTTCTGTTTGCAGCT 58.966 42.857 0.00 0.00 42.29 4.24
4588 4857 3.910627 AGAACCAAGTCCTCAACTACCAT 59.089 43.478 0.00 0.00 37.17 3.55
4895 5167 4.247267 TGGTCACTACTAAAAGTCACCG 57.753 45.455 0.00 0.00 0.00 4.94
4913 5185 2.906389 TCAATCTGGCTAGAGTGTTGGT 59.094 45.455 24.03 0.00 46.28 3.67
5291 5563 3.543680 TCTCTTTAATCGCCTTCTGGG 57.456 47.619 0.00 0.00 38.36 4.45
5338 5610 2.637382 TGTTGTCTGCACTCCTATCCAA 59.363 45.455 0.00 0.00 0.00 3.53
5566 5841 4.040952 ACGCCATCTATGCTTAATCTCCTT 59.959 41.667 0.00 0.00 0.00 3.36
5589 5864 3.067601 TGAACAGCTTGTCGAAGTACTCA 59.932 43.478 0.00 0.00 0.00 3.41
5671 5946 2.612567 GGATTCGCCGCACAACACA 61.613 57.895 0.00 0.00 0.00 3.72
5674 5949 2.480555 CTGGATTCGCCGCACAAC 59.519 61.111 0.00 0.00 40.66 3.32
5697 5972 2.762535 TTAAAGCCTCCTTGACCTCG 57.237 50.000 0.00 0.00 0.00 4.63
6012 6287 2.181975 CTCCCAGGCATGAAACCAAAT 58.818 47.619 0.00 0.00 0.00 2.32
6258 6533 1.627864 TCGGGAAGTCATCAGTGTCA 58.372 50.000 0.00 0.00 0.00 3.58
6306 6581 4.519540 TGCAAAAAGATAAGGGCTCAAC 57.480 40.909 0.00 0.00 0.00 3.18
6481 6756 7.759489 TGTACTCGGTTTTAGTCCTACTAAA 57.241 36.000 7.91 7.91 45.78 1.85
6574 6850 5.186198 CCAAATATCGAAAGGTGTCCTTCT 58.814 41.667 1.36 0.00 43.92 2.85
6590 6866 2.696707 CTGCAGCATTGACCCCAAATAT 59.303 45.455 0.00 0.00 35.67 1.28
6620 6896 6.065976 TGGTTCACATCTTCATCAATACCT 57.934 37.500 0.00 0.00 0.00 3.08
6734 7010 3.443045 GGTCGAACCGCCGTCCTA 61.443 66.667 0.00 0.00 35.44 2.94
6825 7101 4.516323 CCACACATCCATCTCAACATACA 58.484 43.478 0.00 0.00 0.00 2.29
6893 7169 1.145945 TCAATTGGTGCTACCCCAACA 59.854 47.619 5.42 0.00 44.36 3.33
6940 7216 2.884012 CGCTGAATATGCCCAAACCATA 59.116 45.455 0.00 0.00 0.00 2.74
7117 7393 2.025981 ACATGGATAGCAAGCTTCCACA 60.026 45.455 20.41 8.68 42.09 4.17
7158 7434 3.938963 GTGAAACCCATAAGATCTCGCAA 59.061 43.478 0.00 0.00 0.00 4.85
7227 7503 5.615581 CGAAATAGACTTGACAACAACAACG 59.384 40.000 0.00 0.00 32.27 4.10
7240 7516 6.414732 TGACCAAATCCATCGAAATAGACTT 58.585 36.000 0.00 0.00 0.00 3.01
7243 7519 7.681782 GCAAATGACCAAATCCATCGAAATAGA 60.682 37.037 0.00 0.00 0.00 1.98
7244 7520 6.418819 GCAAATGACCAAATCCATCGAAATAG 59.581 38.462 0.00 0.00 0.00 1.73
7245 7521 6.127507 TGCAAATGACCAAATCCATCGAAATA 60.128 34.615 0.00 0.00 0.00 1.40
7246 7522 5.111293 GCAAATGACCAAATCCATCGAAAT 58.889 37.500 0.00 0.00 0.00 2.17
7247 7523 4.021632 TGCAAATGACCAAATCCATCGAAA 60.022 37.500 0.00 0.00 0.00 3.46
7302 7580 6.946340 TCAATTTCAGTATCAGCAGGAGTTA 58.054 36.000 0.00 0.00 0.00 2.24
7610 7973 7.845289 AGGACTATATAAGCTTAGAATACCCCC 59.155 40.741 12.54 10.14 0.00 5.40
7611 7974 8.697292 CAGGACTATATAAGCTTAGAATACCCC 58.303 40.741 12.54 12.03 0.00 4.95
7612 7975 9.476928 TCAGGACTATATAAGCTTAGAATACCC 57.523 37.037 12.54 12.31 0.00 3.69
7618 7981 8.361139 GCAAAGTCAGGACTATATAAGCTTAGA 58.639 37.037 12.54 7.90 41.58 2.10
7619 7982 8.364142 AGCAAAGTCAGGACTATATAAGCTTAG 58.636 37.037 12.54 2.22 41.58 2.18
7620 7983 8.251383 AGCAAAGTCAGGACTATATAAGCTTA 57.749 34.615 8.99 8.99 41.58 3.09
7621 7984 7.070571 AGAGCAAAGTCAGGACTATATAAGCTT 59.929 37.037 3.48 3.48 41.58 3.74
7622 7985 6.553100 AGAGCAAAGTCAGGACTATATAAGCT 59.447 38.462 1.78 6.22 41.58 3.74
7623 7986 6.754193 AGAGCAAAGTCAGGACTATATAAGC 58.246 40.000 1.78 1.86 41.58 3.09
7624 7987 8.301002 GGTAGAGCAAAGTCAGGACTATATAAG 58.699 40.741 1.78 0.00 41.58 1.73
7700 8185 6.323739 AGTTCAGCTGGAATTTTGGAAAGTAA 59.676 34.615 15.13 0.00 37.93 2.24
7780 8265 2.957006 ACGTCTAACTCACACTTCTGGT 59.043 45.455 0.00 0.00 0.00 4.00
7781 8266 3.243434 ACACGTCTAACTCACACTTCTGG 60.243 47.826 0.00 0.00 0.00 3.86
7830 8315 5.073311 TGTCCAGAGCTTGTGAAGTATAC 57.927 43.478 0.00 0.00 0.00 1.47
7941 8426 5.050159 GCTTGCATTGGTTAAAAGGAAACTG 60.050 40.000 0.00 0.00 42.68 3.16
8068 8554 3.132925 GCAGCTTGCTTTCCAAAATGAA 58.867 40.909 0.00 0.00 40.96 2.57
8112 8598 1.747709 ATCTCATCACTTGCACCTGC 58.252 50.000 0.00 0.00 42.50 4.85
8119 8605 6.429078 TGAAGGAAACTGAATCTCATCACTTG 59.571 38.462 0.00 0.00 42.68 3.16
8120 8606 6.537355 TGAAGGAAACTGAATCTCATCACTT 58.463 36.000 0.00 0.00 42.68 3.16
8142 8628 9.181061 TCTTTCTCAATTGATGCATAAATCTGA 57.819 29.630 9.84 13.31 0.00 3.27
8163 8649 1.679153 TCCTGCAAAACCGGTTCTTTC 59.321 47.619 22.53 11.87 0.00 2.62
8167 8653 2.554893 TGTATTCCTGCAAAACCGGTTC 59.445 45.455 22.53 9.09 0.00 3.62
8220 8706 5.111293 CCAGATAAACAATGTCAAATGCCC 58.889 41.667 0.00 0.00 0.00 5.36
8441 8929 2.708861 TCGGGCATAGATAAACACCCAT 59.291 45.455 0.00 0.00 37.16 4.00
8540 9029 2.494059 CATGCCTAGGAATTGGGTACG 58.506 52.381 14.75 0.00 0.00 3.67
8666 9297 6.889301 AGTTATTACGCTGGCATAGTACTA 57.111 37.500 4.77 4.77 0.00 1.82
8667 9298 5.786264 AGTTATTACGCTGGCATAGTACT 57.214 39.130 0.00 0.00 0.00 2.73
8668 9299 8.671921 TCTATAGTTATTACGCTGGCATAGTAC 58.328 37.037 0.00 0.00 0.00 2.73
8685 9316 8.483758 GTCCCCTTCACAATCTTTCTATAGTTA 58.516 37.037 0.00 0.00 0.00 2.24
8686 9317 7.037586 TGTCCCCTTCACAATCTTTCTATAGTT 60.038 37.037 0.00 0.00 0.00 2.24
8687 9318 6.443849 TGTCCCCTTCACAATCTTTCTATAGT 59.556 38.462 0.00 0.00 0.00 2.12
8691 9322 5.779241 ATGTCCCCTTCACAATCTTTCTA 57.221 39.130 0.00 0.00 0.00 2.10
8841 9481 6.331061 AGTCGTTCATACTTGGTCAGAATAC 58.669 40.000 0.00 0.00 0.00 1.89
8877 9517 7.477144 TGTCTGAATATAATAGTGCGTTTGG 57.523 36.000 0.00 0.00 0.00 3.28
8932 9572 5.507077 GTTTCGTCACATGCTGACTTTTAA 58.493 37.500 19.39 10.16 46.50 1.52
8955 9595 7.650903 AGTTTTAGTTTGTAGTGGAGTAACTCG 59.349 37.037 0.00 0.00 31.94 4.18
8964 9605 4.215613 GGCCTGAGTTTTAGTTTGTAGTGG 59.784 45.833 0.00 0.00 0.00 4.00
8967 9608 3.435671 CGGGCCTGAGTTTTAGTTTGTAG 59.564 47.826 5.28 0.00 0.00 2.74
8968 9609 3.404899 CGGGCCTGAGTTTTAGTTTGTA 58.595 45.455 5.28 0.00 0.00 2.41
8969 9610 2.227194 CGGGCCTGAGTTTTAGTTTGT 58.773 47.619 5.28 0.00 0.00 2.83
8970 9611 1.068541 GCGGGCCTGAGTTTTAGTTTG 60.069 52.381 18.31 0.00 0.00 2.93
8971 9612 1.244816 GCGGGCCTGAGTTTTAGTTT 58.755 50.000 18.31 0.00 0.00 2.66
8972 9613 0.953960 CGCGGGCCTGAGTTTTAGTT 60.954 55.000 18.31 0.00 0.00 2.24
8973 9614 1.375523 CGCGGGCCTGAGTTTTAGT 60.376 57.895 18.31 0.00 0.00 2.24
8974 9615 0.462047 ATCGCGGGCCTGAGTTTTAG 60.462 55.000 18.31 0.00 0.00 1.85
8997 9638 4.894784 TGGAACTTTCGCTAGAGAACATT 58.105 39.130 8.56 6.17 0.00 2.71
9008 9649 1.455408 CGGCAAATTTGGAACTTTCGC 59.545 47.619 19.47 1.76 0.00 4.70
9014 9655 4.181309 TGAATACCGGCAAATTTGGAAC 57.819 40.909 19.47 3.20 0.00 3.62
9028 9692 6.524101 TTTAGGCACCTTTTGATGAATACC 57.476 37.500 0.00 0.00 0.00 2.73
9045 9709 4.725790 ATGGCAGTTGATTCTTTTAGGC 57.274 40.909 0.00 0.00 0.00 3.93
9046 9710 8.087750 TGTTAAATGGCAGTTGATTCTTTTAGG 58.912 33.333 10.91 0.00 0.00 2.69
9047 9711 9.132521 CTGTTAAATGGCAGTTGATTCTTTTAG 57.867 33.333 10.91 0.00 0.00 1.85
9050 9714 7.054491 ACTGTTAAATGGCAGTTGATTCTTT 57.946 32.000 10.91 0.00 42.61 2.52
9083 9749 0.530288 TCGTCATGTGATCTCGCCAA 59.470 50.000 0.00 0.00 0.00 4.52
9123 9789 1.267732 GCGAGATGTGGATCAAAAGCG 60.268 52.381 0.00 0.00 0.00 4.68
9139 9805 3.476646 CACACGAGCTGCTGCGAG 61.477 66.667 21.95 17.70 45.42 5.03
9155 9821 3.044235 ACATCTTCAGTGAATGCGACA 57.956 42.857 5.91 0.00 0.00 4.35
9267 9947 5.177326 TGAAATGCTGTTGCTGAAACTTTT 58.823 33.333 0.00 0.00 39.70 2.27
9288 9968 1.301716 GACTGCCCGTTCTTGCTGA 60.302 57.895 0.00 0.00 0.00 4.26
9291 9971 0.598065 AAATGACTGCCCGTTCTTGC 59.402 50.000 0.00 0.00 0.00 4.01
9308 9988 2.397044 AAATGACTGCCCCCTGAAAA 57.603 45.000 0.00 0.00 0.00 2.29
9309 9989 2.247358 GAAAATGACTGCCCCCTGAAA 58.753 47.619 0.00 0.00 0.00 2.69
9310 9990 1.146774 TGAAAATGACTGCCCCCTGAA 59.853 47.619 0.00 0.00 0.00 3.02
9311 9991 0.776810 TGAAAATGACTGCCCCCTGA 59.223 50.000 0.00 0.00 0.00 3.86
9312 9992 1.180029 CTGAAAATGACTGCCCCCTG 58.820 55.000 0.00 0.00 0.00 4.45
9313 9993 0.040204 CCTGAAAATGACTGCCCCCT 59.960 55.000 0.00 0.00 0.00 4.79
9314 9994 1.607801 GCCTGAAAATGACTGCCCCC 61.608 60.000 0.00 0.00 0.00 5.40
9316 9996 0.529378 CTGCCTGAAAATGACTGCCC 59.471 55.000 0.00 0.00 0.00 5.36
9317 9997 0.108945 GCTGCCTGAAAATGACTGCC 60.109 55.000 0.00 0.00 0.00 4.85
9318 9998 0.599558 TGCTGCCTGAAAATGACTGC 59.400 50.000 0.00 0.00 0.00 4.40
9319 9999 2.477357 CGATGCTGCCTGAAAATGACTG 60.477 50.000 0.00 0.00 0.00 3.51
9320 10000 1.741706 CGATGCTGCCTGAAAATGACT 59.258 47.619 0.00 0.00 0.00 3.41
9321 10001 1.739466 TCGATGCTGCCTGAAAATGAC 59.261 47.619 0.00 0.00 0.00 3.06
9322 10002 1.739466 GTCGATGCTGCCTGAAAATGA 59.261 47.619 0.00 0.00 0.00 2.57
9323 10003 1.469703 TGTCGATGCTGCCTGAAAATG 59.530 47.619 0.00 0.00 0.00 2.32
9324 10004 1.741706 CTGTCGATGCTGCCTGAAAAT 59.258 47.619 0.00 0.00 0.00 1.82
9377 10057 3.641437 TTCTGTATGCAAACTTGGTGC 57.359 42.857 0.00 0.00 42.55 5.01


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.